Genomic and genetic analyses of diversity and plant interactions of Pseudomonas fluorescens (2009)
Silby, Mark W, Cerdeño-Tárraga, Ana M, Vernikos, Georgios S, Giddens, Stephen R, Jackson, Robert W, Preston, Gail M, ...
Abstract Background Pseudomonas fluorescens are common soil bacteria that can improve plant health through nutrient cycling, pathogen antagonism and induction of plant defenses. The genome sequences...
Microbial co-habitation and lateral gene transfer: what transposases can tell us (2009)
Hooper, Sean D, Mavromatis, Konstantinos, Kyrpides, Nikos C
Abstract Background Determining the habitat range for various microbes is not a simple, straightforward matter, as habitats interlace, microbes move between habitats, and microbial communities change...
Hooper, Sean D., Anderson, Iain J., Pati, Amrita, Dalevi, Daniel, Mavromatis, Konstantinos, Kyrpides, Nikos C.
In order to simplify and meaningfully categorize large sets of protein sequence data, it is commonplace to cluster proteins based on the similarity of those sequences. However, it quickly becomes...
IMG ER: a system for microbial genome annotation expert review and curation (2009)
Markowitz, Victor M., Mavromatis, Konstantinos, Ivanova, Natalia N., Chen, I-Min A., Chu, Ken, Kyrpides, Nikos C.
Motivation: A rapidly increasing number of microbial genomes are sequenced by organizations worldwide and are eventually included into various public genome data resources. The quality of the...
IMG/M: A data management and analysis system for metagenomes (2008)
Markowitz, Victor M., Ivanova, Natalia N., Szeto, Ernest, Palaniappan, Krishna, Chu, Ken, Dalevi, Daniel, ...
Markowitz, Victor M., Szeto, Ernest, Palaniappan, Krishna, Grechkin, Yuri, Chu, Ken, Chen, I-Min A., ...
Using IMG: Comparative Analysis with the Integrated Microbial Genomes System (2008)
Markowitz, Victor M., Ivanova, Natalia, Anderson, Iain, Lykidis, Athanasios, Mavromatis, Konstantinos, Szeto, Ernest, ...
Liolios, Konstantinos, Mavromatis, Konstantinos, Tavernarakis, Nektarios, Kyrpides, Nikos C.
The Genomes On Line Database (GOLD) is a comprehensive resource that provides information on genome and metagenome projects worldwide. Complete and ongoing projects and their associated metadata can...
Markowitz, Victor M., Szeto, Ernest, Palaniappan, Krishna, Grechkin, Yuri, Chu, Ken, Chen, I-Min A., ...
The integrated microbial genomes (IMG) system is a data management, analysis and annotation platform for all publicly available genomes. IMG contains both draft and complete JGI microbial genomes...
IMG/M: a data management and analysis system for metagenomes (2008)
Markowitz, Victor M., Ivanova, Natalia N., Szeto, Ernest, Palaniappan, Krishna, Chu, Ken, Dalevi, Daniel, ...
IMG/M is a data management and analysis system for microbial community genomes (metagenomes) hosted at the Department of Energy's (DOE) Joint Genome Institute (JGI). IMG/M consists of metagenome data...
Genome Sequence and Analysis of the Soil Cellulolytic Actinomycete Thermobifida fusca (2007)
Lykidis, Athanasios, Mavromatis, Konstantinos, Ivanova, Natalia, Anderson, Iain, Land, Miriam, DiBartolo, Genevieve, ...
Thermobifida fusca is a moderately thermophilic soil bacterium that belongs to Actinobacteria. 3 It is a major degrader of plant cell walls and has been used as a model organism for the study of 4...
Konstantinos Liolios, Konstantinos Mavromatis, Nektarios Tavernarakis, Nikos C. Kyrpides
status of genomic and metagenomic projects and their associated metadata
Nucleic Acids Research, 2007, 1–5 (2007)
Victor M. Markowitz, Natalia N. Ivanova, Ernest Szeto, Ken Chu, Daniel Dalevi, ...
IMG/M: a data management and analysis system for metagenomes
Use of simulated data sets to evaluate the fidelity of Metagenomic processing methods (2006)
Mavromatis, Konstantinos, Ivanova, Natalia, Barry, Kerri, Shapiro, Harris, Goltsman, Eugene, McHardy, Alice C., ...
The integrated microbial genomes (IMG) system (2006)
Markowitz, Victor M., Korzeniewski, Frank, Palaniappan, Krishna, Szeto, Ernest, Werner, Greg, Padki, Anu, ...
The integrated microbial genomes (IMG) system is a new data management and analysis platform for microbial genomes provided by the Joint Genome Institute (JGI). IMG contains both draft and complete...
doi:10.1093/nar/gkj024 The integrated microbial genomes (IMG) system (2005)
Victor M. Markowitz, Frank Korzeniewski, Ernest Szeto, Greg Werner, Anu Padki, Xueling Zhao, ...
The integrated microbial genomes (IMG) system is a new data management and analysis platform for microbial genomes provided by the Joint Genome Institute (JGI). IMG contains both draft and complete...
Lonhienne, Thierry, Mavromatis, Konstantinos, Vorgias, Constantin E., Buchon, Laurent, Gerday, Charles, Bouriotis, Vassilis
Arthrobacter sp. strain TAD20, a chitinolytic gram-positive organism, was isolated from the sea bottom along the Antarctic ice shell. Arthrobacter sp. strain TAD20 secretes two major chitinases, ChiA...
Lonhienne, Thierry, Mavromatis, Konstantinos, Vorgias, Constantin E., Buchon, Laurent, Gerday, Charles, Bouriotis, Vassilis
Arthrobacter sp. strain TAD20, a chitinolytic gram-positive organism, was isolated from the sea bottom along the Antarctic ice shell. Arthrobacter sp. strain TAD20 secretes two major chitinases, ChiA...
Lonhienne, Thierry, Mavromatis, Konstantinos, Vorgias, Constantin E., Buchon, Laurent, Gerday, Charles, Bouriotis, Vassilis
Arthrobacter sp. strain TAD20, a chitinolytic gram-positive organism, was isolated from the sea bottom along the Antarctic ice shell. Arthrobacter sp. strain TAD20 secretes two major chitinases, ChiA...
The integrated microbial genomes (IMG) system
Markowitz, Victor M., Korzeniewski, Frank, Palaniappan, Krishna, Szeto, Ernest, Werner, Greg, Padki, Anu, ...
The integrated microbial genomes (IMG) system is a new data management and analysis platform for microbial genomes provided by the Joint Genome Institute (JGI). IMG contains both draft and complete...
Lonhienne, Thierry, Mavromatis, Konstantinos, Vorgias, Constantin E., Buchon, Laurent, Gerday, Charles, Bouriotis, Vassilis
Arthrobacter sp. strain TAD20, a chitinolytic gram-positive organism, was isolated from the sea bottom along the Antarctic ice shell. Arthrobacter sp. strain TAD20 secretes two major chitinases, ChiA...
The integrated microbial genomes (IMG) system
Markowitz, Victor M., Korzeniewski, Frank, Palaniappan, Krishna, Szeto, Ernest, Werner, Greg, Padki, Anu, ...
The integrated microbial genomes (IMG) system is a new data management and analysis platform for microbial genomes provided by the Joint Genome Institute (JGI). IMG contains both draft and complete...
Genome Sequence and Analysis of the Soil Cellulolytic Actinomycete Thermobifida fusca YX▿
Lykidis, Athanasios, Mavromatis, Konstantinos, Ivanova, Natalia, Anderson, Iain, Land, Miriam, DiBartolo, Genevieve, ...
Thermobifida fusca is a moderately thermophilic soil bacterium that belongs to Actinobacteria. It is a major degrader of plant cell walls and has been used as a model organism for the study of...
Deinococcus geothermalis: The Pool of Extreme Radiation Resistance Genes Shrinks
Makarova, Kira S., Omelchenko, Marina V., Gaidamakova, Elena K., Matrosova, Vera Y., Vasilenko, Alexander, Zhai, Min, ...
Bacteria of the genus Deinococcus are extremely resistant to ionizing radiation (IR), ultraviolet light (UV) and desiccation. The mesophile Deinococcus radiodurans was the first member of this group...
The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions
Markowitz, Victor M., Szeto, Ernest, Palaniappan, Krishna, Grechkin, Yuri, Chu, Ken, Chen, I-Min A., ...
The integrated microbial genomes (IMG) system is a data management, analysis and annotation platform for all publicly available genomes. IMG contains both draft and complete JGI microbial genomes...
IMG/M: a data management and analysis system for metagenomes
Markowitz, Victor M., Ivanova, Natalia N., Szeto, Ernest, Palaniappan, Krishna, Chu, Ken, Dalevi, Daniel, ...
IMG/M is a data management and analysis system for microbial community genomes (metagenomes) hosted at the Department of Energy's (DOE) Joint Genome Institute (JGI). IMG/M consists of metagenome data...
Liolios, Konstantinos, Mavromatis, Konstantinos, Tavernarakis, Nektarios, Kyrpides, Nikos C.
The Genomes On Line Database (GOLD) is a comprehensive resource that provides information on genome and metagenome projects worldwide. Complete and ongoing projects and their associated metadata can...
Genome Analysis of the Anaerobic Thermohalophilic Bacterium Halothermothrix orenii
Mavromatis, Konstantinos, Ivanova, Natalia, Anderson, Iain, Lykidis, Athanasios, Hooper, Sean D., Sun, Hui, ...
Halothermothirx orenii is a strictly anaerobic thermohalophilic bacterium isolated from sediment of a Tunisian salt lake. It belongs to the order Halanaerobiales in the phylum Firmicutes. The...
Hooper, Sean D., Anderson, Iain J., Pati, Amrita, Dalevi, Daniel, Mavromatis, Konstantinos, Kyrpides, Nikos C.
In order to simplify and meaningfully categorize large sets of protein sequence data, it is commonplace to cluster proteins based on the similarity of those sequences. However, it quickly becomes...
Microbial co-habitation and lateral gene transfer: what transposases can tell us
Hooper, Sean D, Mavromatis, Konstantinos, Kyrpides, Nikos C
Interactions between microbial communities are revealed using a network of lateral gene transfer events.
Genomic and genetic analyses of diversity and plant interactions of Pseudomonas fluorescens
Silby, Mark W, Cerdeño-Tárraga, Ana M, Vernikos, Georgios S, Giddens, Stephen R, Jackson, Robert W, Preston, Gail M, ...
Comparison of the genome sequences of three Pseudomonas fluorescens strains reveals a heterogeneity reminiscent of a species complex rather than a single species